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Package: bsseq
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Version: 1.17.2
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Encoding: UTF-8
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Title: Analyze, manage and store bisulfite sequencing data
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Description: A collection of tools for analyzing and visualizing bisulfite
sequencing data.
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Authors@R: c(person(c("Kasper", "Daniel"), "Hansen", role = c("aut", "cre"),
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email = "kasperdanielhansen@gmail.com"),
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person("Peter", "Hickey", role = "aut", email = "peter.hickey@gmail.com"))
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Depends:
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R (>= 3.3),
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methods,
BiocGenerics,
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GenomicRanges (>= 1.29.14),
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SummarizedExperiment (>= 1.9.18),
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parallel
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Imports:
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IRanges (>= 2.11.16),
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GenomeInfoDb,
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scales,
stats,
graphics,
Biobase,
locfit,
gtools,
data.table,
S4Vectors,
R.utils (>= 2.0.0),
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DelayedMatrixStats (>= 1.1.12),
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permute,
limma,
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DelayedArray (>= 0.5.34),
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HDF5Array
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Suggests:
RUnit,
bsseqData,
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BiocStyle,
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rmarkdown,
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knitr,
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Collate:
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utils.R
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hasGRanges.R
BSseq_class.R
BSseqTstat_class.R
BSseq_utils.R
combine.R
read.bsmooth.R
read.bismark.R
BSmooth.R
BSmooth.tstat.R
dmrFinder.R
gof_stats.R
plotting.R
fisher.R
permutations.R
BSmooth.fstat.R
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BSseqStat_class.R
getStats.R
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hdf5_utils.R
combine_utils.R
DelayedArray_utils.R
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License: Artistic-2.0
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VignetteBuilder: knitr
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URL: https://github.com/kasperdanielhansen/bsseq
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LazyData: yes
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LazyDataCompression: xz
BugReports: https://github.com/kasperdanielhansen/bsseq/issues
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biocViews: DNAMethylation
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